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Coexpression cluster:C200: Difference between revisions

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|ontology_enrichment_uberon=UBERON:0003081!2.26e-14!203;UBERON:0000926!1.86e-12!315;UBERON:0004120!1.86e-12!315;UBERON:0006603!1.86e-12!315;UBERON:0000923!3.78e-09!560;UBERON:0010316!3.78e-09!560;UBERON:0005291!3.78e-09!560;UBERON:0006598!3.78e-09!560;UBERON:0010317!3.78e-09!560;UBERON:0002532!3.78e-09!560;UBERON:0001009!9.00e-09!112;UBERON:0005423!9.62e-09!581;UBERON:0007023!1.31e-08!114;UBERON:0002050!1.50e-08!564;UBERON:0000468!1.60e-08!656;UBERON:0004535!4.50e-08!109;UBERON:0002049!8.45e-08!78;UBERON:0007798!8.45e-08!78;UBERON:0002204!8.70e-08!167;UBERON:0000922!1.12e-07!592;UBERON:0000055!1.78e-07!68;UBERON:0000467!2.46e-07!624;UBERON:0007500!3.18e-07!59;UBERON:0001981!3.18e-07!59;UBERON:0004537!3.18e-07!59;UBERON:0006965!3.18e-07!59;UBERON:0000480!3.38e-07!625;UBERON:0001637!6.65e-07!42;UBERON:0003509!6.65e-07!42;UBERON:0004572!6.65e-07!42
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|tfbs_overrepresentation_for_novel_motifs=0.0245677,2.85938e-06,0.122862,0.106006,0.000334054,0.888385,0.0694715,2.47749,0.00775685,2.02983e-06,0.177766,0.44648,0.0551694,0.562043,0.945283,0.181233,0.244932,0.0324395,0.266677,0.213091,0.524788,8.6367e-06,0.854661,0.352738,0.0401449,0.0259581,0.00766025,0.0962958,0.147482,0.0389862,0.148794,0.284341,0.00174123,0.226346,0.00599229,8.89046e-09,0.00121424,0.0365192,0.114656,0.0047654,0.160145,0.0554567,3.12749,0.0718879,0.0320255,0.0835128,0.0700491,0.0235328,0.636089,0.0778897,0.842848,0.941844,0.00519421,0.753672,0.200869,0.171587,2.61543,0.136797,0.0388647,0.733312,0.331217,0.604792,0.89267,0.217042,0.65772,0.184636,0.25777,0.543298,0.0795636,0.409608,0.00227712,0.961968,6.505e-05,0.199649,0.00184808,0.159817,0.00555614,0.054543,0.0783033,0.0372979,0.846623,0.816557,0.399218,1.38324,0.169365,3.62658e-07,0.000652862,0.00136009,0.0347943,0.629621,0.323637,0.468696,0.628955,0.0858939,0.0334299,0.10511,0.484031,0.109229,0.0359122,0.000670111,0.2979,0.296797,1.16293,0.248738,0.174369,0.171533,0.0653136,0.0129119,0.191569,0.0600495,0.0258952,1.15448,0.115677,0.799095,0.289088,0.153547,2.11706e-06,1.57648,0.0484986,0.0212647,0.567044,0.321854,2.38788,0.422803,0.370678,0.444657,0.344421,0.308903,4.30575,0.106595,3.58964,0.282648,0.230247,0.0858203,0.333134,0.00283015,0.141352,0.00604622,1.48161,1.05119,0.676239,0.757004,0.873729,1.1692,0.175916,0.00905733,0.161512,0.899965,0.125183,0.462204,0.0975525,1.51682e-08,0.154943,0.0646854,0.36265,0.434031,3.33201,0.120459,0.0978087,0.0279944,0.75508,0.145005,0.26858,0.151305,0.743893,0.397587,0.000254776,0.0146891,4.36642e-07
}}
}}

Revision as of 13:46, 26 November 2012


Full id: C200_seminal_Cardiac_Smooth_Hair_submaxillary_Neutrophils_mixed



Phase1 CAGE Peaks

Hg19::chr10:50911176..50911180,-p@chr10:50911176..50911180
-
Hg19::chr10:50911313..50911330,-p@chr10:50911313..50911330
-
Hg19::chr11:111691980..111692005,-p@chr11:111691980..111692005
-
Hg19::chr11:13285557..13285582,+p@chr11:13285557..13285582
+
Hg19::chr11:77597678..77597713,+p1@ENST00000516522
Hg19::chr11:85195010..85195053,+p2@ENST00000463796
Hg19::chr12:127650900..127650948,-p1@ENST00000488123
Hg19::chr12:127650961..127650963,-p4@ENST00000488123
Hg19::chr12:127650966..127650970,-p3@ENST00000488123
Hg19::chr12:127650982..127650997,-p2@ENST00000488123
Hg19::chr12:20704366..20704465,+p1@ENST00000459949
Hg19::chr12:34372645..34372687,-p1@ENST00000483424
Hg19::chr12:85562743..85562771,-p@chr12:85562743..85562771
-
Hg19::chr14:43722994..43723027,+p@chr14:43722994..43723027
+
Hg19::chr14:90341521..90341554,-p1@ENST00000471006
Hg19::chr16:33963051..33963078,+p@chr16:33963051..33963078
+
Hg19::chr16:33963085..33963113,+p@chr16:33963085..33963113
+
Hg19::chr16:33963114..33963125,+p@chr16:33963114..33963125
+
Hg19::chr16:33963205..33963248,+p@chr16:33963205..33963248
+
Hg19::chr16:33963307..33963381,+p@chr16:33963307..33963381
+
Hg19::chr16:33963702..33963740,+p@chr16:33963702..33963740
+
Hg19::chr16:33963885..33963944,+p@chr16:33963885..33963944
+
Hg19::chr19:24182441..24182447,-p@chr19:24182441..24182447
-
Hg19::chr19:24183089..24183138,-p@chr19:24183089..24183138
-
Hg19::chr19:24183260..24183291,-p@chr19:24183260..24183291
-
Hg19::chr19:24183404..24183444,-p@chr19:24183404..24183444
-
Hg19::chr19:24186160..24186198,-p@chr19:24186160..24186198
-
Hg19::chr19:42070281..42070329,-p@chr19:42070281..42070329
-
Hg19::chr19:42070456..42070481,-p@chr19:42070456..42070481
-
Hg19::chr19:43911276..43911313,+p@chr19:43911276..43911313
+
Hg19::chr19:43911674..43911688,+p@chr19:43911674..43911688
+
Hg19::chr1:237766403..237766436,+p@chr1:237766403..237766436
+
Hg19::chr1:237766565..237766606,+p@chr1:237766565..237766606
+
Hg19::chr1:237766669..237766688,+p@chr1:237766669..237766688
+
Hg19::chr1:91852815..91852953,-p1@ENST00000516420
Hg19::chr1:91852985..91853011,-p2@ENST00000516420
Hg19::chr1:91853019..91853049,-p@chr1:91853019..91853049
-
Hg19::chr21:15457277..15457318,-p@chr21:15457277..15457318
-
Hg19::chr21:15457426..15457442,-p@chr21:15457426..15457442
-
Hg19::chr2:133012497..133012510,-p@chr2:133012497..133012510
-
Hg19::chr2:133012853..133012916,-p@chr2:133012853..133012916
-
Hg19::chr2:133013392..133013403,-p@chr2:133013392..133013403
-
Hg19::chr2:133013454..133013486,-p@chr2:133013454..133013486
-
Hg19::chr2:133013686..133013716,-p@chr2:133013686..133013716
-
Hg19::chr2:133036537..133036585,-p@chr2:133036537..133036585
-
Hg19::chr2:133036692..133036736,-p@chr2:133036692..133036736
-
Hg19::chr2:133037053..133037081,-p@chr2:133037053..133037081
-
Hg19::chr2:133037423..133037469,-p@chr2:133037423..133037469
-
Hg19::chr2:133037552..133037583,-p@chr2:133037552..133037583
-
Hg19::chr2:133037595..133037612,-p@chr2:133037595..133037612
-
Hg19::chr2:159440737..159440770,-p@chr2:159440737..159440770
-
Hg19::chr2:191402684..191402709,-p@chr2:191402684..191402709
-
Hg19::chr2:191402749..191402790,-p1@ENST00000492032
Hg19::chr2:203211018..203211031,-p@chr2:203211018..203211031
-
Hg19::chr2:203211038..203211057,-p2@ENST00000473498
Hg19::chr2:78928720..78928755,+p@chr2:78928720..78928755
+
Hg19::chr2:78928877..78928888,+p@chr2:78928877..78928888
+
Hg19::chr2:78928923..78928950,+p@chr2:78928923..78928950
+
Hg19::chr4:107924792..107924829,-p@chr4:107924792..107924829
-
Hg19::chr4:76807171..76807211,+p1@ENST00000464639
Hg19::chr5:154788152..154788155,+p1@ENST00000485443
Hg19::chr6:144692233..144692263,-p@chr6:144692233..144692263
-
Hg19::chr7:104966296..104966333,+p1@ENST00000469253
Hg19::chr7:68527622..68527642,+p2@ENST00000517158
Hg19::chr7:80962970..80962986,+p@chr7:80962970..80962986
+
Hg19::chr7:80963063..80963113,+p@chr7:80963063..80963113
+
Hg19::chr8:21456056..21456083,+p@chr8:21456056..21456083
+
Hg19::chr8:46951861..46951876,-p@chr8:46951861..46951876
-
Hg19::chr8:46952011..46952037,-p@chr8:46952011..46952037
-
Hg19::chr8:56755211..56755245,-p@chr8:56755211..56755245
-
Hg19::chr8:56822005..56822038,-p1@ENST00000481252
Hg19::chr8:69218623..69218656,-p@chr8:69218623..69218656
-
Hg19::chr8:70602393..70602439,-p1@ENST00000516388
Hg19::chr8:70602464..70602479,-p2@ENST00000516388
Hg19::chr8:70602485..70602518,-p@chr8:70602485..70602518
-
Hg19::chr8:70602589..70602625,-p@chr8:70602589..70602625
-
Hg19::chr9:19278548..19278559,+p@chr9:19278548..19278559
+
Hg19::chr9:79186644..79186694,+p1@ENST00000463508
Hg19::chrX:108297392..108297444,+p@chrX:108297392..108297444
+
Hg19::chrX:108297652..108297666,+p@chrX:108297652..108297666
+
Hg19::chrX:108297700..108297742,+p@chrX:108297700..108297742
+
Hg19::chrX:108297778..108297814,+p@chrX:108297778..108297814
+
Hg19::chrX:47749756..47749774,-p1@ENST00000487797


Enriched pathways on this co-expression cluster<b>Summary:</b><br>Canonical pathway gene sets were compiled from Reactome, Wikipathways and KEGG. For the major signaling pathways, the transcriptionally-regulated genes (downstream targets) were obtained from Netpath. Combined, the canonical pathways and downstream targets totaled 489 human gene sets. The corresponding M. musculus gene sets were inferred by homology using the HomoloGene database. Enrichment for each of the canonical 489 pathways and gene sets included in the co-expression cluster was assessed by the hypergeometric probability. The resulting P values were also then adjusted by the Benjamini-Hochberg method for multiple comparisons.<br><b>Analyst: </b>Emmanuel Dimont<br><br>link to source dataset<br>data

No results for this coexpression

Enriched Gene Ontology terms on this co-expression cluster<b>Summary:</b> Results for GOStat analysis on co-expressed clusters. Each cluster with promoters mapping to at least two different genes was analysed with GOStat (PMID: 14962934) with default parameter. <br><b>Analyst:</b> Erik Arner<br><br>link to source dataset<br>data

No GOStat results

Enriched sample ontology terms on this co-expression cluster<b>Summary:</b>To summarize promoter activities (expression profile of a TSS region) across ~1000 samples, we performed enrichment analysis based on FANTOM5 Sample Ontology (FF ontology). The question here is “in which type of samples the promoter is more active”. To answer this question, we compared expressions (TPMs) in the samples associated with a sample ontology term and the rest of the samples by using the Mann-Whitney rank sum test. To summarize ontologies enriched in this co-expression cluster, we ran the same analysis on an averaged expression profile of all promoters that make up. <b>Analyst:</b> Hideya Kawaji <br><br>links to source dataset<br><br>cell_data<br>uberon_data<br><br>

Cell Type
Ontology termp-valuen
defensive cell4.13e-0848
phagocyte4.13e-0848
macrophage dendritic cell progenitor1.52e-0761
monopoietic cell4.22e-0759
monocyte4.22e-0759
monoblast4.22e-0759
promonocyte4.22e-0759
classical monocyte5.38e-0742
CD14-positive, CD16-negative classical monocyte5.38e-0742
smooth muscle cell9.98e-0743
smooth muscle myoblast9.98e-0743
Uber Anatomy
Ontology termp-valuen
lateral plate mesoderm2.26e-14203
mesoderm1.86e-12315
mesoderm-derived structure1.86e-12315
presumptive mesoderm1.86e-12315
germ layer3.78e-09560
germ layer / neural crest3.78e-09560
embryonic tissue3.78e-09560
presumptive structure3.78e-09560
germ layer / neural crest derived structure3.78e-09560
epiblast (generic)3.78e-09560
circulatory system9.00e-09112
developing anatomical structure9.62e-09581
adult organism1.31e-08114
embryonic structure1.50e-08564
multi-cellular organism1.60e-08656
cardiovascular system4.50e-08109
vasculature8.45e-0878
vascular system8.45e-0878
musculoskeletal system8.70e-08167
embryo1.12e-07592
vessel1.78e-0768
anatomical system2.46e-07624
epithelial tube open at both ends3.18e-0759
blood vessel3.18e-0759
blood vasculature3.18e-0759
vascular cord3.18e-0759
anatomical group3.38e-07625
artery6.65e-0742
arterial blood vessel6.65e-0742
arterial system6.65e-0742


Overrepresented TFBS (DNA) motifs on this co-expression cluster<b>Summary:</b>The values shown are the p-values for overrepresentation of the motif in this coexpression cluster. So a small p-value means a strong overrepresentation. <b>Analyst:</b> Michiel de Hoon <br><br>link to source data <br> Novel motifs <br>data <br><br> Jaspar motifs <br>data

Novel motifs



JASPAR motifs

Motifs-log10(p-value)

{{{tfbs_overrepresentation_jaspar}}}



ENCODE TF ChIP-seq peak enrichment analysis<b>Summary:</b> For each TF and each co-expression cluster, the number of promoters with ENCODE TF ChIP signal was compared with the rest of promoters from the robust set using Fisher's exact test. Clusters with significant ChIP enrichment (q <= 0.05) after Benjamini-Hochberg correction were retained. <br><b>Analyst:</b> Erik Arner<br><br>link to source dataset<br><br>data

No analysis results for this cluster

Relative expression of the co-expression cluster<b>Summary:</b>Co-expression clusters are compared against FANTOM5 samples to obtain relative expression. <br><b>Analyst:</b>NA<br><br>link to data source<br> data

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